[Trilinos-Users] [EXTERNAL] hdf5

[Bradley, Andrew Michael]

Hi Elek,

It may help if you set 
    -D TPL_ENABLE_X11:BOOL=OFF

Cheers,
Andrew


From: Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of Eligiusz Postek <ewpostek at googlemail.com>
Sent: Sunday, November 12, 2017 2:00 PM
To: Lofstead, Gerald F II; Eric Bavier; trilinos-users at trilinos.org
Subject: Re: [Trilinos-Users] [EXTERNAL] hdf5
  


Hi,
The hdf5/netcdf libs are linked.
Thank you for your good avice.


It appeared a new problem, but with X
1) tri_x/Trilinos.git> cd  build
getline_int.c:(.text+0x49e8): warning: Using 'getpwuid' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking
/usr/lib64/libX11.a(GetDflt.o): In function `GetHomeDir':
/usr/src/packages/BUILD/libX11-1.1.5/src/GetDflt.c:133: warning: Using 'getpwnam_r' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking
/usr/src/packages/BUILD/libX11-1.1.5/src/GetDflt.c:135: warning: Using 'getpwuid_r' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking

The option -static does not help


2) There is an error:
/usr/lib64/libX11.a(ClDisplay.o): In function `XCloseDisplay':
/usr/src/packages/BUILD/libX11-1.1.5/src/ClDisplay.c:78: undefined  reference to `xcb_disconnect'
/usr/lib64/libX11.a(OpenDis.o): In function `OutOfMemory':
/usr/src/packages/BUILD/libX11-1.1.5/src/OpenDis.c:929: undefined reference to `xcb_disconnect'
/usr/lib64/libX11.a(OpenDis.o): In function `XOpenDisplay':
/usr/src/packages/BUILD/libX11-1.1.5/src/OpenDis.c:366: undefined reference to `xcb_get_setup'
/usr/src/packages/BUILD/libX11-1.1.5/src/OpenDis.c:676: undefined reference to `xcb_get_maximum_request_length'
/usr/lib64/libX11.a(xcb_lock.o): In function `_XPutXCBBuffer':
/usr/src/packages/BUILD/libX11-1.1.5/src/xcb_lock.c:181: undefined reference to `xcb_get_request_sent'
/usr/lib64/libX11.a(xcb_lock.o): In function `issue_complete_request':



and more of this kind,


Could you still give a hand ?


Thank you, Elek



 


On Sun, Nov 12, 2017 at 3:04 PM, Lofstead, Gerald F II  <gflofst at sandia.gov> wrote:


Hi Elek,
 
Did you get it working?
 
Best,
 
Jay
 

From:  Eligiusz Postek <ewpostek at googlemail.com>
Date: Thursday, November 9, 2017 at 6:18 PM
To: "Lofstead, Gerald F II" <gflofst at sandia.gov>
Subject: Re: [EXTERNAL] [Trilinos-Users] hdf5
 
 
 

Sorry about second mail on this topic.



It finds the static libs, but  there are shared as well.  
 


In consequence, there is the error.
 
Could help with "how to" ?
 
Thank you, Elek
 

- HDF5_LIBRARY_NAMES='hdf5;z;hdf5_hl'
-- Searching for libs in HDF5_LIBRARY_DIRS='/opt/cray/hdf5/1.8.16/GNU/5.1/lib'
-- Searching for a lib in the set "hdf5":
--   Searching for lib 'hdf5' ...
--     Found lib '/opt/cray/hdf5/1.8.16/GNU/5.1/lib/libhdf5.a'
-- Searching for a lib in the set "z":
--   Searching for lib 'z' ...
--     Found lib '/usr/lib64/libz.a'
    


 

On Fri, Nov 10, 2017 at 2:07 AM, Eligiusz Postek <ewpostek at googlemail.com> wrote:
 

Hi Jay,
 
Yes, it looks.
 

I have such lines now. However, it does not change anything.

-D CMAKE_CXX_FLAGS:STRING="-O2 -ansi -std=c++11 -shared-libgcc -ftrapv -pedantic -Wall -Wno-long-long" \

-D BUILD_SHARED_LIBS:BOOL=ON \
 
Can you give a hint ?
 
Best, Elek
  


 

On Fri, Nov 10, 2017 at 1:38 AM, Lofstead, Gerald F II <gflofst at sandia.gov> wrote:
 

Hi Elek,
 
It looks to me like the HDF5 library was built assuming shared libraries only and you are trying to link just statically. Is that the case?
 
Best,
 
Jay
 

From:  Trilinos-Users <trilinos-users-bounces at trilinos.org> on behalf of Eligiusz Postek <ewpostek at googlemail.com>
Date: Thursday, November 9, 2017 at 5:35 PM
To: "trilinos-users at trilinos.org" <trilinos-users at trilinos.org>
Subject: [EXTERNAL] [Trilinos-Users] hdf5
 


 
 

Hello,
 
Could it mean that the cray libs (hdf5) are incomplete ?
 
Is there any other error ?
 
best regards, Elek
 


[ 34%] Building CXX object packages/teuchos/parameterlist/src/CMakeFiles/teuchosparameterlist.dir/Teuchos_StringInputStream.cpp.o
/opt/cray/hdf5/1.8.16/GNU/5.1/lib/libhdf5.a(H5PL.o): In function `H5PL_load':
H5PL.c:(.text+0x634): warning: Using 'dlopen' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking
/opt/cray/hdf5/1.8.16/GNU/5.1/lib/libhdf5_hl.a(H5LT.o): In function `H5LT_dtype_to_text':
H5LT.c:(.text+0x2871): undefined reference to `H5Tget_tag'
/opt/cray/hdf5/1.8.16/GNU/5.1/lib/libhdf5_hl.a(H5LTparse.o): In function `H5LTyyparse':
H5LTparse.c:(.text+0x108d): undefined reference to `H5Tset_tag'
collect2: error: ld returned 1 exit status
make[2]: *** [packages/seacas/applications/nem_slice/nem_slice] Error 1